Emergence and characterization of unusual DS-1-like G1P[8] rotavirus strains in children with diarrhea in Thailand

Satoshi Komoto, Ratana Tacharoenmuang, Ratigorn Guntapong, Tomihiko Ide, Kei Haga, Kazuhiko Katayama, Takema Kato, Yuya Ouchi, Hiroki Kurahashi, Takao Tsuji, Somchai Sangkitporn, Koki Taniguchi

Research output: Contribution to journalArticle

31 Citations (Scopus)

Abstract

The emergence and rapid spread of unusual DS-1-like G1P[8] rotaviruses in Japan have been recently reported. During rotavirus surveillance in Thailand, three DS-1-like G1P[8] strains (RVA/Human-wt/THA/PCB-180/2013/G1P[8], RVA/Human-wt/THA/SKT-109/2013/G1P[8], and RVA/Human-wt/THA/SSKT-41/2013/G1P[8]) were identified in stool specimens from hospitalized children with severe diarrhea. In this study, we sequenced and characterized the complete genomes of strains PCB-180, SKT-109, and SSKT-41. On whole genomic analysis, all three strains exhibited a unique genotype constellation including both genogroup 1 and 2 genes: G1-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2. This novel genotype constellation is shared with Japanese DS-1-like G1P[8] strains. Phylogenetic analysis revealed that the G/P genes of strains PCB-180, SKT-109, and SSKT-41 appeared to have originated from human Wa-like G1P[8] strains. On the other hand, the non-G/P genes of the three strains were assumed to have originated from human DS-1-like strains. Thus, strains PCB-180, SKT-109, and SSKT-41 appeared to be derived through reassortment event(s) between Wa-like G1P[8] and DS-1-like human rotaviruses. Furthermore, strains PCB-180, SKT-109, and SSKT-41 were found to have the 11-segment genome almost indistinguishable from one another in their nucleotide sequences and phylogenetic lineages, indicating the derivation of the three strains from a common origin. Moreover, all the 11 genes of the three strains were closely related to those of Japanese DS-1-like G1P[8] strains. Therefore, DS-1-like G1P[8] strains that have emerged in Thailand and Japan were assumed to have originated from a recent common ancestor. To our knowledge, this is the first report on whole genome-based characterization of DS-1-like G1P[8] strains that have emerged in an area other than Japan. Our observations will provide important insights into the evolutionary dynamics of emerging DS-1-like G1P[8] rotaviruses.

Original languageEnglish
Article numbere0141739
JournalPloS one
Volume10
Issue number11
DOIs
Publication statusPublished - 05-11-2015

Fingerprint

Rotavirus
Thailand
Diarrhea
diarrhea
Tacrine
Genes
Japan
Genotype
Genome
Hospitalized Child
varespladib methyl
PCB 180
genome
genes
genotype
phylogeny
Nucleotides

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Komoto, S., Tacharoenmuang, R., Guntapong, R., Ide, T., Haga, K., Katayama, K., ... Taniguchi, K. (2015). Emergence and characterization of unusual DS-1-like G1P[8] rotavirus strains in children with diarrhea in Thailand. PloS one, 10(11), [e0141739]. https://doi.org/10.1371/journal.pone.0141739
Komoto, Satoshi ; Tacharoenmuang, Ratana ; Guntapong, Ratigorn ; Ide, Tomihiko ; Haga, Kei ; Katayama, Kazuhiko ; Kato, Takema ; Ouchi, Yuya ; Kurahashi, Hiroki ; Tsuji, Takao ; Sangkitporn, Somchai ; Taniguchi, Koki. / Emergence and characterization of unusual DS-1-like G1P[8] rotavirus strains in children with diarrhea in Thailand. In: PloS one. 2015 ; Vol. 10, No. 11.
@article{03f759c34fb54d2aa5de90df170f7a49,
title = "Emergence and characterization of unusual DS-1-like G1P[8] rotavirus strains in children with diarrhea in Thailand",
abstract = "The emergence and rapid spread of unusual DS-1-like G1P[8] rotaviruses in Japan have been recently reported. During rotavirus surveillance in Thailand, three DS-1-like G1P[8] strains (RVA/Human-wt/THA/PCB-180/2013/G1P[8], RVA/Human-wt/THA/SKT-109/2013/G1P[8], and RVA/Human-wt/THA/SSKT-41/2013/G1P[8]) were identified in stool specimens from hospitalized children with severe diarrhea. In this study, we sequenced and characterized the complete genomes of strains PCB-180, SKT-109, and SSKT-41. On whole genomic analysis, all three strains exhibited a unique genotype constellation including both genogroup 1 and 2 genes: G1-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2. This novel genotype constellation is shared with Japanese DS-1-like G1P[8] strains. Phylogenetic analysis revealed that the G/P genes of strains PCB-180, SKT-109, and SSKT-41 appeared to have originated from human Wa-like G1P[8] strains. On the other hand, the non-G/P genes of the three strains were assumed to have originated from human DS-1-like strains. Thus, strains PCB-180, SKT-109, and SSKT-41 appeared to be derived through reassortment event(s) between Wa-like G1P[8] and DS-1-like human rotaviruses. Furthermore, strains PCB-180, SKT-109, and SSKT-41 were found to have the 11-segment genome almost indistinguishable from one another in their nucleotide sequences and phylogenetic lineages, indicating the derivation of the three strains from a common origin. Moreover, all the 11 genes of the three strains were closely related to those of Japanese DS-1-like G1P[8] strains. Therefore, DS-1-like G1P[8] strains that have emerged in Thailand and Japan were assumed to have originated from a recent common ancestor. To our knowledge, this is the first report on whole genome-based characterization of DS-1-like G1P[8] strains that have emerged in an area other than Japan. Our observations will provide important insights into the evolutionary dynamics of emerging DS-1-like G1P[8] rotaviruses.",
author = "Satoshi Komoto and Ratana Tacharoenmuang and Ratigorn Guntapong and Tomihiko Ide and Kei Haga and Kazuhiko Katayama and Takema Kato and Yuya Ouchi and Hiroki Kurahashi and Takao Tsuji and Somchai Sangkitporn and Koki Taniguchi",
year = "2015",
month = "11",
day = "5",
doi = "10.1371/journal.pone.0141739",
language = "English",
volume = "10",
journal = "PLoS One",
issn = "1932-6203",
publisher = "Public Library of Science",
number = "11",

}

Komoto, S, Tacharoenmuang, R, Guntapong, R, Ide, T, Haga, K, Katayama, K, Kato, T, Ouchi, Y, Kurahashi, H, Tsuji, T, Sangkitporn, S & Taniguchi, K 2015, 'Emergence and characterization of unusual DS-1-like G1P[8] rotavirus strains in children with diarrhea in Thailand', PloS one, vol. 10, no. 11, e0141739. https://doi.org/10.1371/journal.pone.0141739

Emergence and characterization of unusual DS-1-like G1P[8] rotavirus strains in children with diarrhea in Thailand. / Komoto, Satoshi; Tacharoenmuang, Ratana; Guntapong, Ratigorn; Ide, Tomihiko; Haga, Kei; Katayama, Kazuhiko; Kato, Takema; Ouchi, Yuya; Kurahashi, Hiroki; Tsuji, Takao; Sangkitporn, Somchai; Taniguchi, Koki.

In: PloS one, Vol. 10, No. 11, e0141739, 05.11.2015.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Emergence and characterization of unusual DS-1-like G1P[8] rotavirus strains in children with diarrhea in Thailand

AU - Komoto, Satoshi

AU - Tacharoenmuang, Ratana

AU - Guntapong, Ratigorn

AU - Ide, Tomihiko

AU - Haga, Kei

AU - Katayama, Kazuhiko

AU - Kato, Takema

AU - Ouchi, Yuya

AU - Kurahashi, Hiroki

AU - Tsuji, Takao

AU - Sangkitporn, Somchai

AU - Taniguchi, Koki

PY - 2015/11/5

Y1 - 2015/11/5

N2 - The emergence and rapid spread of unusual DS-1-like G1P[8] rotaviruses in Japan have been recently reported. During rotavirus surveillance in Thailand, three DS-1-like G1P[8] strains (RVA/Human-wt/THA/PCB-180/2013/G1P[8], RVA/Human-wt/THA/SKT-109/2013/G1P[8], and RVA/Human-wt/THA/SSKT-41/2013/G1P[8]) were identified in stool specimens from hospitalized children with severe diarrhea. In this study, we sequenced and characterized the complete genomes of strains PCB-180, SKT-109, and SSKT-41. On whole genomic analysis, all three strains exhibited a unique genotype constellation including both genogroup 1 and 2 genes: G1-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2. This novel genotype constellation is shared with Japanese DS-1-like G1P[8] strains. Phylogenetic analysis revealed that the G/P genes of strains PCB-180, SKT-109, and SSKT-41 appeared to have originated from human Wa-like G1P[8] strains. On the other hand, the non-G/P genes of the three strains were assumed to have originated from human DS-1-like strains. Thus, strains PCB-180, SKT-109, and SSKT-41 appeared to be derived through reassortment event(s) between Wa-like G1P[8] and DS-1-like human rotaviruses. Furthermore, strains PCB-180, SKT-109, and SSKT-41 were found to have the 11-segment genome almost indistinguishable from one another in their nucleotide sequences and phylogenetic lineages, indicating the derivation of the three strains from a common origin. Moreover, all the 11 genes of the three strains were closely related to those of Japanese DS-1-like G1P[8] strains. Therefore, DS-1-like G1P[8] strains that have emerged in Thailand and Japan were assumed to have originated from a recent common ancestor. To our knowledge, this is the first report on whole genome-based characterization of DS-1-like G1P[8] strains that have emerged in an area other than Japan. Our observations will provide important insights into the evolutionary dynamics of emerging DS-1-like G1P[8] rotaviruses.

AB - The emergence and rapid spread of unusual DS-1-like G1P[8] rotaviruses in Japan have been recently reported. During rotavirus surveillance in Thailand, three DS-1-like G1P[8] strains (RVA/Human-wt/THA/PCB-180/2013/G1P[8], RVA/Human-wt/THA/SKT-109/2013/G1P[8], and RVA/Human-wt/THA/SSKT-41/2013/G1P[8]) were identified in stool specimens from hospitalized children with severe diarrhea. In this study, we sequenced and characterized the complete genomes of strains PCB-180, SKT-109, and SSKT-41. On whole genomic analysis, all three strains exhibited a unique genotype constellation including both genogroup 1 and 2 genes: G1-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2. This novel genotype constellation is shared with Japanese DS-1-like G1P[8] strains. Phylogenetic analysis revealed that the G/P genes of strains PCB-180, SKT-109, and SSKT-41 appeared to have originated from human Wa-like G1P[8] strains. On the other hand, the non-G/P genes of the three strains were assumed to have originated from human DS-1-like strains. Thus, strains PCB-180, SKT-109, and SSKT-41 appeared to be derived through reassortment event(s) between Wa-like G1P[8] and DS-1-like human rotaviruses. Furthermore, strains PCB-180, SKT-109, and SSKT-41 were found to have the 11-segment genome almost indistinguishable from one another in their nucleotide sequences and phylogenetic lineages, indicating the derivation of the three strains from a common origin. Moreover, all the 11 genes of the three strains were closely related to those of Japanese DS-1-like G1P[8] strains. Therefore, DS-1-like G1P[8] strains that have emerged in Thailand and Japan were assumed to have originated from a recent common ancestor. To our knowledge, this is the first report on whole genome-based characterization of DS-1-like G1P[8] strains that have emerged in an area other than Japan. Our observations will provide important insights into the evolutionary dynamics of emerging DS-1-like G1P[8] rotaviruses.

UR - http://www.scopus.com/inward/record.url?scp=84951309784&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84951309784&partnerID=8YFLogxK

U2 - 10.1371/journal.pone.0141739

DO - 10.1371/journal.pone.0141739

M3 - Article

C2 - 26540260

AN - SCOPUS:84951309784

VL - 10

JO - PLoS One

JF - PLoS One

SN - 1932-6203

IS - 11

M1 - e0141739

ER -